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Hi developer,
I am using SortMeRNA to remove rRNA from my metatranscriptome data, and while I expected most rRNA reads to be depleted. The cleaned reads contain 25,721,937 R1 and 25,721,937 R2 reads…
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the plugin runs single-ended sequences that are of type 'SampleData[SequencesWithQuality]' fine but when I import the same sequences with the same manifest using the data type 'SampleData[JoinedSequ…
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### Description of the bug
The error is saying I don't have a header in my csv file but I have the exact header as the tutorial.
`sample,fastq_1,fastq_2
6_13_22,/hdd/2/elyse/microbiome/Sweden_MS…
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So the neatsort function acts on ordinated data and sorts before it's plotted in a heatmap, so hierarchical clustering isn't used which can often distort relationships. https://bmcbioinformatics.biome…
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beav --input shivanshi_bakta_annotation/Plant_Pathogen/Pectobacterium_carotovorum/Pectobacterium_carotovorum.fna --output beav23/ --skip_tiger --bakta_arguments '--db $HOME/Shivanshi/shivanshi_bakta_…
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Hi, first of all I want to say thanks for developing such a cool tool for analyzing microbiome data! It is super helpful.
I am currently having issues with the top_taxa function. I have a phyloseq …
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After we moved similar functions under same manual page, we lost some "hidden" parameters that were described under `...`. That is because one manual page can have only one description for each parame…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/microbiome/iSEEtree
Confirm the following by edit…
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Hi all,
First, thank you for all the work that you do on maintaining this package, it is truly invaluable for microbiome analysis.
I'm trying to process ~1100 dental plaque samples. These are V…
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I recently updated my conda env (see below), which broke the R function `cmdscale()` for for larger distance matrices. If I provide a distance matrix larger than the lower triangle of a 200 x 200 matr…